GLI2.H14RSNP.0.PSM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLI2.H14RSNP.0.PSM.D
Gene (human)	GLI2 (GeneCards)
Gene synonyms (human)	THP
Gene (mouse)	Gli2
Gene synonyms (mouse)	Thp
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	16
Consensus	SddSGTGGGTGGTCbn
GC content	64.38%
Information content (bits; total / per base)	19.724 / 1.233
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9996
Previous names	GLI2.H12RSNP.0.PSM.D

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Mouse	5 (17)	0.905	0.933	0.823	0.889	0.903	0.933	3.581	4.482	27.31	199.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.999	0.999	0.997	0.996	0.968	0.966
Overall, 4 experiments	best	1.0	1.0	1.0	1.0	0.999	0.998
Methyl HT-SELEX, 1 experiments	median	1.0	1.0	0.999	0.999	0.995	0.993
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	0.999	0.999	0.995	0.993
Non-Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.994	0.992	0.941	0.938
Non-Methyl HT-SELEX, 3 experiments	best	1.0	1.0	1.0	1.0	0.999	0.998

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	GLI-like {2.3.3.1} (TFClass)
TFClass ID	TFClass: 2.3.3.1.2
HGNC	HGNC:4318
MGI	MGI:95728
EntrezGene (human)	GeneID:2736 (SSTAR profile)
EntrezGene (mouse)	GeneID:14633 (SSTAR profile)
UniProt ID (human)	GLI2_HUMAN
UniProt ID (mouse)	GLI2_MOUSE
UniProt AC (human)	P10070 (TFClass)
UniProt AC (mouse)	Q0VGT2 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 5 mouse
HT-SELEX	3
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	GLI2.H14RSNP.0.PSM.D.pcm
PWM	GLI2.H14RSNP.0.PSM.D.pwm
PFM	GLI2.H14RSNP.0.PSM.D.pfm
Threshold to P-value map	GLI2.H14RSNP.0.PSM.D.thr
Motif in other formats
JASPAR format	GLI2.H14RSNP.0.PSM.D_jaspar_format.txt
MEME format	GLI2.H14RSNP.0.PSM.D_meme_format.meme
Transfac format	GLI2.H14RSNP.0.PSM.D_transfac_format.txt
Homer format	GLI2.H14RSNP.0.PSM.D_homer_format_0.001.txt GLI2.H14RSNP.0.PSM.D_homer_format_0.0005.txt GLI2.H14RSNP.0.PSM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1023.5	6828.5	1351.5	792.5
02	2670.0	1083.0	3988.0	2255.0
03	4432.0	1017.0	1053.0	3494.0
04	419.0	6381.0	2018.0	1178.0
05	240.0	208.0	9061.0	487.0
06	51.0	141.0	37.0	9767.0
07	86.0	9.0	9876.0	25.0
08	0.0	1.0	9763.0	232.0
09	0.0	0.0	9991.0	5.0
10	15.0	7.0	6.0	9968.0
11	1.0	1.0	9992.0	2.0
12	2.0	1.0	9990.0	3.0
13	0.0	345.0	718.0	8933.0
14	291.0	9489.0	153.0	63.0
15	815.75	2769.75	2447.75	3962.75
16	2592.25	2174.25	2072.25	3157.25

PFM

	A	C	G	T
01	0.102	0.683	0.135	0.079
02	0.267	0.108	0.399	0.226
03	0.443	0.102	0.105	0.35
04	0.042	0.638	0.202	0.118
05	0.024	0.021	0.906	0.049
06	0.005	0.014	0.004	0.977
07	0.009	0.001	0.988	0.003
08	0.0	0.0	0.977	0.023
09	0.0	0.0	0.999	0.001
10	0.002	0.001	0.001	0.997
11	0.0	0.0	1.0	0.0
12	0.0	0.0	0.999	0.0
13	0.0	0.035	0.072	0.894
14	0.029	0.949	0.015	0.006
15	0.082	0.277	0.245	0.396
16	0.259	0.218	0.207	0.316

PWM

	A	C	G	T
01	-0.891	1.005	-0.614	-1.146
02	0.066	-0.835	0.467	-0.103
03	0.573	-0.898	-0.863	0.335
04	-1.781	0.937	-0.214	-0.751
05	-2.334	-2.476	1.287	-1.632
06	-3.849	-2.86	-4.153	1.362
07	-3.344	-5.4	1.374	-4.518
08	-6.991	-6.63	1.362	-2.368
09	-6.991	-6.991	1.385	-5.836
10	-4.974	-5.594	-5.708	1.383
11	-6.63	-6.63	1.385	-6.365
12	-6.365	-6.63	1.385	-6.156
13	-6.991	-1.974	-1.245	1.273
14	-2.143	1.334	-2.779	-3.646
15	-1.118	0.103	-0.021	0.461
16	0.037	-0.139	-0.187	0.234

Standard thresholds

P-value	Threshold
0.001	-2.55519
0.0005	-0.64829
0.0001	3.33111